General information for g10409.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g10409 is located on chr_1: 9597654..9598377 (+ strand)
Gene structure
- The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.
| Chromosome | Gene | Transcript | Category | ID | Start | End |
|---|---|---|---|---|---|---|
| chr_1 | g10409 | g10409.t4 | isoform | g10409.t4 | 9595004 | 9597069 |
| chr_1 | g10409 | g10409.t4 | exon | g10409.t4.exon1 | 9595004 | 9595021 |
| chr_1 | g10409 | g10409.t4 | exon | g10409.t4.exon2 | 9596116 | 9596232 |
| chr_1 | g10409 | g10409.t4 | exon | g10409.t4.exon3 | 9596291 | 9596571 |
| chr_1 | g10409 | g10409.t4 | cds | g10409.t4.CDS1 | 9596527 | 9596571 |
| chr_1 | g10409 | g10409.t4 | exon | g10409.t4.exon4 | 9596635 | 9597069 |
| chr_1 | g10409 | g10409.t4 | cds | g10409.t4.CDS2 | 9596635 | 9597069 |
| chr_1 | g10409 | g10409.t4 | TSS | g10409.t4 | NA | NA |
| chr_1 | g10409 | g10409.t4 | TTS | g10409.t4 | NA | NA |
Sequences
>g10409.t4 Gene=g10409 Length=851
ATGCAAAGTTTAATTAAGGCTACCAGGTCTAATAGTGACATGAGAGACGTTGCAACAAGA
ATTTGTCGCGAATACTTATCAGGAGCATGGAAGACAATATCACAAGATGAAATTCAAGTC
AAGCGAATGAGGTATTGGCGGTCTCTCAAATTTTTTATACTATGTAAGTTTGCCAAATCG
AAATGATTTTGGTGAAAATACAAATTTATCTAAACGGACACGTAAAGATAGTTATCATAG
CTCTATGGAACCTACTAAAGTATTGTTAAGGATTTATGGTCAGAGTCACGGTGAGCATGC
TCTTGAGACAATGCTTACAGAATCTGTTGTGTTCGCATTATTGAGTGAAAGACAATTAGG
ACCAAAATTACATGGAATTTTTCCCGGAGGAAGAATTGAACAATACATTCCAGTTAGCTC
GTTCTTTGACAACTGCCGAATTATCCGATAGCAAAATTTCTGCAAAAATTGCTGAAAAAA
TGGGACAAATACATAGCTTACACATTCCTGTTAGCAAAGAGGCTGATTGGATTTTCAATA
CGATTAATAGATGGTTAAACAATGTTGATGCAATTATGAATGATATCAAAAACAATAACA
ATGATGATGACCAAGTTCCGGAAATTCAGAAACGATTAAGCAAAATTGATTTAAGGCATG
AAGCGAATTGGTTAAAAAAAATTGCAGAGACCGAGTCGTATCCAGTTGTCTTTTGTCATA
ATGATCTTCAAGAAGGTAACATACTGTTTCGTCAAAATAACTTTGTTCCACCTGATGATT
TAGTAGAAACACTTGATGAAGAACTTCACAAAATTGATGACCTCTCACCAATGCTTATCT
CATGTCCAAAA
>g10409.t4 Gene=g10409 Length=160
MEFFPEEELNNTFQLARSLTTAELSDSKISAKIAEKMGQIHSLHIPVSKEADWIFNTINR
WLNNVDAIMNDIKNNNNDDDQVPEIQKRLSKIDLRHEANWLKKIAETESYPVVFCHNDLQ
EGNILFRQNNFVPPDDLVETLDEELHKIDDLSPMLISCPK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g10409.t4 | Gene3D | G3DSA:3.90.1200.10 | - | 1 | 149 | 0 |
| 2 | g10409.t4 | PANTHER | PTHR22603 | CHOLINE/ETHANOALAMINE KINASE | 12 | 149 | 0 |
| 3 | g10409.t4 | PANTHER | PTHR22603:SF84 | RE24176P | 12 | 149 | 0 |
| 1 | g10409.t4 | Pfam | PF01633 | Choline/ethanolamine kinase | 6 | 129 | 0 |
| 4 | g10409.t4 | SUPERFAMILY | SSF56112 | Protein kinase-like (PK-like) | 17 | 130 | 0 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
KEGG
Orthology
This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
Expression
Transcript expression in Pv11 cells
TPM values are indicated as average +/- STDEV. 
Differential expression
Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below.
